REGULATIONS, SCHEME AND

SYLLABUS FOR
M.Sc. BIOINFORMATICS PROGRAMME
(UNDER CSS)
AT AFFILIATED COLLEGES OF
MAHATMA GANDHI UNIVERSITY
KOTTAYAM, KERALA
(W.E.F 2012201!)

REGULATIONS, SCHEME " SYLLABUS OF M.Sc. DEGREE
PROGRAMME IN BIOINFORMATICS
1. ELIGIBILITY " ADMISSION
B.Sc in Biochemistry, Biophysics, Biotechnology, Plant Biotechnology,
Bio-informatics, Botany, Zoology/Plant Biology/Chemistry/Computer Science,
Computer Application, Electronics, Environmental Science, Mathematics,
Microiology, Physics, Statistics !ith not less than ""# mar$s in the su%ect
concerne&. MBBS, B.'ech an& B.Sc. M(' &egree hol&ers can also apply.
2. CURRICULUM
'he M.Sc. Bioinformatics Programme un&er the Cre&it an& Semester
System )CSS* consisting of + semesters shall e,ten& over a perio& of - years.
Semester means a term consisting of a minimum of ./ !or$ing &ays, inclusive of
e,amination, &istriute& over a minimum of 01 !ee$s of " !or$ing &ays each. A
stu&ent has to complete a minimum of 1/ cre&its !hich !oul& e &istriute& as
follo!ing.
C#$% C#&$'% (PC)
a* 'heory - +" Cre&its
* Practicals - 02 Cre&its
E(%c)*+% C#&$'% (PE)
a* 'heory - 0- Cre&its
* Pro%ect - + Cre&its
c* 3iva 3oce 4 5 Cre&its
,C#&$'%- means a segment of su%ect matter to e covere& in a semester.
,C$%.*)- (C$) of a course is a measure of the !ee$ly unit of !or$ assigne& for
that course in a semester.
,C#&$'% C$%.*)- 6ne cre&it of the course is &efine& as a minimum of one hour
lecture /minimum of - hours la/fiel& !or$ per !ee$ for 01 !ee$s in a semester.
'he course !ill e consi&ere& as complete& only y con&ucting the final
e,amination. 7o regular stu&ent shall register for more than -+ cre&its an& less
than 02 cre&its per semester. 'he total minimum cre&its, re8uire& for completing a
P9 programme is 1/.
,P$#/$011% C#$% c#&$'%- (PC) means a course that the stu&ent a&mitte&
to a particular programme must successfully complete to receive the :egree an&
!hich cannot e sustitute& y any other course.
;P$#/$011% E(%c)*+% c#&$'%- (PE) means a course, !hich can e
sustitute&, y e8uivalent course from the same su%ect an& a minimum numer
of courses is re8uire& to complete the programme.
,P$#/$011% P$#2%c)- means a regular pro%ect !or$ !ith state& cre&its on
!hich the stu&ent un&ergo a pro%ect un&er the supervision of a teacher in the
parent &epartment / any appropriate research center in or&er to sumit a
&issertation on the pro%ect !or$ as specifie&.
,Ac0.%1*c 3%%4- is a unit of five !or$ing &ays in !hich &istriution of !or$
is organi<e& from &ay one to &ay five, !ith five contact hours of one hour
&uration in each &ay. A se8uence of 01 such aca&emic !ee$ constitutes a
semester.
5%$# S%1%')%$ means a semester in !hich a stu&ent is permitte& to opt out &ue
to unforeseen genuine reason.
E601*70)*#78
'o e con&ucte& as per rules an& regulations frame& un&er cre&it an&
semester system.
'here shall e =niversity e,amination at the en& of each semester.
Practical e,aminations shall e con&ucte& y the =niversity at the en& of each
semester.
Pro%ect evaluation an& 3iva -3oce shall e con&ucte& at the en& of the
programme only. Pro%ect evaluation an& 3iva-3oce shall e con&ucte& y t!o
e,ternal e,aminers an& one internal e,aminer.
'here shall e one en&-semester e,amination of 5 hours &uration in each
lecture ase& course an& practical course.
A 8uestion paper may contain short ans!er type/annotation, short essay type
8uestions/prolems an& long essay type 8uestions. :ifferent types of
8uestions shall have &ifferent !eightage to 8uantify their range. >eightage
can vary from course to course &epen&ing on their comparative importance,
ut a general pattern may e follo!e& y the Boar& of Stu&ies.
EVALUATION AND GRADING
Evaluation? 'he evaluation scheme for each course shall contain t!o parts@ )a*
internal evaluation an& )* e,ternal evaluation. -"# !eightage shall e given to
internal evaluation an& the remaining A"# to e,ternal evaluation an& the ratio an&
!eightage et!een internal an& e,ternal is 0?5. Both internal an& e,ternal
evaluation shall e carrie& out using :irect-gra&ing system.
I7)%$70( %+0(&0)*#7
'he internal evaluation shall e ase& on pre&etermine& transparent
system involving perio&ic !ritten tests, assignments, seminars an& atten&ance in
respect of theory courses an& ase& on !ritten tests, la s$ill/recor&s/viva an&
atten&ance in respect of practical courses. 'he !eightage assigne& to various
components for internal evaluation is a follo!s.
C#19#7%7)' W%*/:)0/%
i* Assignment-------- 0
ii* Seminar --------------
iii* Atten&ance -------- 0
iv* '!o 'est papersB-
(etter 9ra&e Performance 9ra&e point)9* 9ra&e Cange
A E,cellent + 5."/ to +.//
B 3ery 9oo& 5 -."/ to 5.+.
C 9oo& - 0."/ to -.+.
: Average 0 /."/ to 0.+.
G$0.%' ;#$ A))%7.07c%
< #; A))%7.07c% G$0.%
D./# A
Bet!een 1" an& ./ B
Bet!een 1/ an& elo! 1" C
Bet!een A" an& elo! 1/ :
DA/# E
A''*/71%7)
C#19#7%7)' W%*/:)'
Punctuality 0
Cevie! 0
Content -
Conclusion 0
Ceference 0
S%1*70$
C#19#7%7)' W%*/:)'
Area/'opic Selecte& 0
Cevie!/Ceference 0
Content -
Presentation -
Conclusion 0
P$0c)*c0(I7)%$70(
C#19#7%7)' W%*/:)'
Atten&ance 0
(aoratory Envolvement -
>ritten/(a test -
Cecor& -
3iva-3oce/Fui< 0
PRO=ECT EVALUATION
I7)%$70(
C#19#7%7)' W%*/:)'
Punctuality 0
E,perimentation/:ata Collection 0
Compilation 0
Content 0
E6)%$70(
C#19#7%7)' W%*/:)'
Area/'opics Selecte& 0
6%ectives -
Cevie! 0
Materials G Metho&s -
Analysis -
Presentation -
Conclusion/application -
DIRECT GRADING SYSTEM
:irect 9ra&ing System ase& on a " - point scale is use& to evaluate the
performance )E,ternal an& Enternal E,amination of stu&ents*. 'he overall gra&e
for a programme for certification shall e ase& on C9PA !ith a A-point scale
given elo!.
CGPA G$0.%
5.1/ to +.// AH
5."/ to 5.A. A
5.// to 5.+. BH
-."/ to -... B
-.// to -.+. CH
0."/ to 0... C
0.// to 0.+. :
A separate minimum of C gra&e is re8uire& for a pass for oth internal
evaluation an& e,ternal evaluation for every course. Ior a pass in a programme a
separate minimum gra&e C re8uire& for all the courses an& must score minimum
C9PA of 0."/ or an overall gra&e of C an& aove.
After the successful completion of a semester, Semester 9ra&e Point
Average )S9PA* of a stu&ent in that semester is calculate& using the formula
given elo!. Ior the successful completion of semester, a stu&ent shoul& pass all
courses an& score a minimum S9PA of -./. Jo!ever, a stu&ent is permitte& to
move to the ne,t semester irrespective of her/his S9PA.
Ior instance, if a stu&ent has registere& for ;nK courses of cre&its C0, C-
LLLL,Cn in a semester an& if she/he has score& cre&it points P0,
P-LLLL.,Pn respectively in these courses, then S9PA of the stu&ent in that
semester is calculate& using the formula.
SGPA> (P1?P2?@@@@@.?P7)A (C1?C2?@@@@@?C7)
CGPA > B(SGPA)1CS1 ? (SGPA)2CS2 ? (SGPA)!CS! ? (SGPA)DCSDEA
S1?S2?S!?SD)
>here S0, S-, S5, an& S+ are the total cre&its in semester0, semester-,
semester5 an& semester +.
P0))%$7 #; F&%')*#7'
Fuestions shall e set to assess $no!le&ge ac8uire&, stan&ar& application
of $no!le&ge, application of $no!le&ge in ne! situations, critical evaluation of
$no!le&ge an& the aility to synthesi<e $no!le&ge. 'he 8uestion setter shall
ensure that 8uestions covering all s$ills are set. Je/she shall also sumit a &etaile&
scheme of evaluation along !ith the 8uestion paper. A 8uestion paper shall e a
%u&icious mi, of short ans!er type, short essay type/prolem solving type an&
long essay type 8uestions.
W%*/:)8 :ifferent type of 8uestions shall e given &ifferent !eights to 8uantify
their range as follo!s.
S(.N#. TG9% #; F&%')*#7' W%*/:)
N&1H%$ #;
I&%')*#7' )# H%
07'3%$%.
0
Short Ans!er type
Fuestions)not
e,cee&ing one page*
0 " out of 1
-
Short essay/Prolem
solving type
8uestions)not
e,cee&ing - pages*
- " out of 1
5
(ong Essay type
8uestions
" 5 out of 2
GRADE CARD
'he =niversity un&er its seal shall issue to the stu&ents, a gra&e car& on
completion of each semester, !hich shall contain the follo!ing information.
7ame of the =niversity, 7ame of college, 'itle of the P9 Programme, 7ame of
Semester, 7ame an& Cegister 7umer of stu&ents, Co&e numer, 'itle an& Cre&its
of each course opte& in the semester, 'itle an& Cre&its of the Pro%ect >or$.
En a&&ition to these the gra&e car& shall contain internal, e,ternal an& total
gra&e, 9ra&e Point )9*, (etter gra&e an& Cre&it point )P* in each course opte& in
the semester, the total cre&it, total cre&it points an& S9PA in the semester.
'he Iinal 9ra&e Car& issue& at the en& of the final semester shall contain
the &etails of all courses ta$en &uring the entire programme inclu&ing those ta$en
over an& aove the prescrie& minimum cre&its for otaining the &egree. 'he
Iinal 9ra&e Car& shall sho! the C9PA an& the overall letter gra&e of a stu&ent for
the entire programme.
SEMESTER COURSE TITLE
HOURSA
WEEK
CREDIT
TOTAL
CREDIT
I
BIF1M001PC1Entro&uction to Cell Biology
an& Biomolecules
+ +
0.
BIF1M001PC2Iun&amentals of Applie&
Mathematics G Biostatistics
5 5
BIF1M001PC!-9enetics an& Molecular
Biology
+ +
BIF1M001PCD-Entro&uction to Computing
an& Bioinformatics
+ +
BIF1M001PP1-(aoratory Course 0 0/ +
II
BIF2M002PCJMetaolism G Bioenergetics + +
0.
BIF2M002PCK 9eneral Microiology 5 5
BIF2M002PCL M9enomics + +
BIF2M002PCN Bioinformatics G PEC( + +
BIF2M002PP2 (aoratory Course - 0/ +
III BIF!M00!PCO M Proteomics + + 0.
BIF!M00!PC10 Emmunology + +
BIF!M00!PC11 M:BMS G Biological
:ataases
+ +
BIF!M00!PC12 Bioinformatics in the future 5 5
BIF!M00!PP! (aoratory Course 5 0/ +
IV
BIFDM00DPE1 9enetic Engineering G EPC " +
-5
BIFDM00DPE2 CA:: G Molecular
Mo&elling
" +
BIFDM00DPE! Bioprogramming G Soft
Computing 'echni8ues
" +
BIFDM00DPPD (aoratory Course + 0/ +
BIFDM00DPD Pro%ect 6C :issertation - +
3E3A-36CE - 5
A..*)*#70(
E(%c)*+%'
#; F#&$):
S%1%')%$
BIFDM00DPED EPC GBioethics " +
BIFDM00DPEJ Pharmaceutical Chemistry G
Action of Selecte& :rugs
" +
BIFDM00DPEK Basics of 7anotechnology " +
M.Sc. BIOINFORMATICS
1
')
S%1%')%$ CBCSS
P09%$ I INTRODUCTION TO CELL BIOLOGY AND BIO MOLECULES
BIF1M001PC14 Cre&its 4 +
U7*) M 1
(ife 4 Iorm G Iunction
6rigin of (ife
Pro$aryotic G Eu$aryotic Cells )Cellular Architecture*
Structural 6rgani<ation an& Iunction of Entracellular 6rganelles
Cell Memrane 4 Structure an& Iunction
Memrane 'ransport
U7*) M II
9enomic 6rgani<ation in Pro$aryotes G Eu$aryotes,
Cell :ivision an& Cell Cycle
Cellular Communication
U7*) M III
Cell Signalling an& Cancer
U7*) M IV
Structural =nits, Chemistry an& Iunction of
Carohy&rates
Proteins
(ipi&s
7ucleic Aci&s
U7*) M V
Structural =nits, Chemistry an& Iunction of
Plant G Animal Jormones
Plant G Animal Pigments
7eurotransmitters
3itamins
R%;%$%7c%'
0. Campell, Essential Biology )Ari&ge&*, Camri&ge.
-. Starr G 'aggart, Biology ? 'he =nity an& :iversity of (ife.
5. (ehninger ? Principles of Biochemistry.
+. (uert Stinger ? Biochemistry
". :onal& 3oet G Mu&ith.9.3oet 4 Biochemistry.
2. Murary ? JarperKs Biochemistry
A. 9eoffry.M Cooper an& Coert.E.Jansmann ? 'he Cell
P09%$ II FUNDAMENTALS OF APPLIED MATHEMATICS AND
BIOSTATISTICS
BIF1M001PC2M C$%.*)' M !
U7*) I M S%)'
Set 'heory, Sets ? Celations an& Iunctions, Counting an& 6peration, :efinition of Sets
an& Susets, Comination, :emorganKs (a!s Iactorial, Permutation, Binonial
Coefficients, Mathematical En&uction
U7*) II M P$#H0H*(*)G
(a!s of Proaility ? Proaility Events, A&&ition an& Multiplication 'heorem,
Con&itional Proaility ? Bayis 'heorem, Can&om 3ariales ? Proaility :istriution,
Binomial, Poisson, 7ormal, ;tK etc@ Sampling ? Process ? Proaility 3ectors, Stochastic
matrices, Matri, chains.
U7*) M III M V%c)#$' " M0)$*c%'
3ectors ? Scalars G 3ectors@A&&ition, Sutraction, :ot, Cross an& Scalar 'riple Pro&ucts.
Matrices ? 'ypes, A&&ition, Sutraction, Multiplication 'ranspose G Enverse,
:eterminants, Solutions of Simultaneous e8uations using matrices, 'ransformation
Matrices Ior Scaling, 'ranslation, Cotation, Ceflection etc.
U7*) M IV M I7)$#.&c)*#7 )# G$09: T:%#$G
Basic 'erminology, :irecte& an& =n&irecte& 9raphs, 3ertices an& E&ges, Sugraphs,
Esomorphism, Correcte&ness, Components, >eighte& 9raphs, Shortest paths in >eighte&
9raphs, Eulerian paths an& Circuits, necessary an& sufficient con&itions Jamiltonian
Paths 4 Sufficient con&itions Bipartite 9raphs, Planar 9raphs, Applications of 9raphs in
Bioinformatics G Computer
U7*) M V M I7)$#.&c)*#7 )# B*#')0)*')*c'
Collection, Classification G :iagrammatic Cepresentation of Statistical :ata, Ire8uency,
Ire8uency :istriution Measures of Central 'en&ency? Mean, me&ian, mo&e, geometric
mean, harmonic mean, Percentile Measures of :ispersion ? Cange, Mean &eviation,
3ariance G Stan&ar& :eviation Cegression G Correlation, Chi-S8uare 'est, Stu&ents '-
test, A763A an& other statistical Pac$ages.
R%;%$%7c%'
0. Ch.(iue ? Elements of :iscrete Mathematics
-. Jarara I ? 9raph 'heory
5. Briley 7.M.' ? Statistical Metho&s in Biology
+. So$al C.C., Cohl E.M ? Entro&uction to Biostatistics
". Menny 6live, Maths 4 A Self Stu&y 9ui&e, Camri&ge =niversity Press.
2. Ale,an&er Esacev-Entro&uction to Mathematical Metho&s in Bioinformatics,
Springer.
A. Sun&ar Cao G Cichar&-An Entro&uction to Biostatistics PJ0, 5e.
1. (ipschut<-'heory G Prolem of Proaility ? SchannKs 6utlineK Series, 'ata
Mc9ra! Jill.
P09%$ III M GENETICS AND MOLECULAR BIOLOGY
BIF1M001PC!M C$%.*)' M D
U7*) M 1 M G%7%)*c'
Jere&ity an& 3ariation
Men&elism 4 E,periments in 9ar&en Pea, Monohyri& G :ihyri& Crosses, :ominance,
Segregation an& En&epen&ent Assortment.
Concept of 9ene 4 Alleles, Multiple Alleles, 9ene Enteractions, Epistasis, Pleiotropy,
Complementation 'ests.
(in$age, Crossing over an& chromosome maps, chromosome theory of Enheritance.
Maternal effects an& Cytoplasmic inheritance.
U7*) M II
9enomic 6rgani<ation in Pro$aryotes an& Eu$aryotes. Chromosome an& Chromatin
Structure, Structural an& 7umerical alterations of Chromosomes. 9ene Mutations an&
their molecular asis
U7*) M III
:7A as genetic material, >atson 4 Cric$ Mo&el, :7A Polymorphism, :7A Super
Coiling
Iunctions of :7A an& E,periments Proving genetic material is store& in :7A.
:7A replication in Pro$aryotes an& Eu$aryotes
:7A replication in phage an& N0A+ )Colling Circle Ceplication*
:7A &amage, :7A repair, :7A recomination.
Mechanisms of 'ranspositions in eu$aryotes an& 3iruses !ith specific e,amples.
U7*) M IV
E,pression of the 9enome
'ranscription in Pro$aryotes an& Eu$aryotes
Post transcriptional processing in Pro$aryotes an& Eu$aryotes
Structural an& functional aspects of 9enetic Co&e
Mechanism of 'ranslation ? Protein Synthesis an& Post 4 'ranslational Mo&ifications
U7*) M V Cegulation of 9ene E,pression
Constitutive, En&ucile an& Cepressile gene e,pression.
(ac 6peron, 'ryptophan an& Arainose 6peron in E.Coli
R%;%$%7c%'8
0. 9ar&ner E ? Principles of 9enetics
-. 9upta P.O ? Cytology, 9enetics an& Evolution
5. Snusta&, Simmons ? Principles of 9enetics.
+. Entro&uction to 9enetic Analysis Eighth E&ition, 9riffiths, >essler
". 9enes 3EEE ? (e!in
2. Olug, Cummings ? Concepts of 9enetics
A. Molecular Biology of the 9ene ? Mames :.>atson
1. Coert I.>eaver ? Molecular Biology
.. 9upta P.O ? Cell an& Molecular Biology
PAPER IV M INTRODUCTION TO COMPUTING AND BIOINFORMATICS
BIF1M001PCDM C$%.*)' M D
U7*) I M I7)$#.&c)*#7 )# C#19&)%$ SG')%1'
Entro&uction ? Characteristics of Computer Systems@ Iunctions an& Components of
Computer@ Memory =nits@ Computer Soft!areKs ? 6perating Systems Iunctions an&
Classifications, =tilities, Compilers an& Enterpreter, >or& Processor, :BMS, Emage
Processor@ Programming (anguages
MS 6ffice 4 Ma$ing effective Po!er Point Presentations, Moile 'echnologies 4
An&roi& G 6ther 6perating Systems.
Entro&uction to Bioinformatics
>hat is Bioinformatics Aim of Bioinformatics, Branches of Bioinformatics, Comparative
Stu&y of Bioinformatics an& Computational Comparative Stu&y of Bioinformatics an&
Computational Biology, Scope / Cesearch Areas of Bioinformatics, Pharmaceutical, CG:
an& Bioinformatics in&ustries an& Enstitutions in En&ia G >orl& !i&e.
U7*) M II M N%)3#$4' " I7)%$7%)
7et!or$s ? Entro&uction@ 7et!or$ Classification (A7, >A7, MA7, Connection
Metho&s 4 >ire& G >ireless 'echnologies.
Enternet ? >>>@ Search engines, Entranet, =C(, I'P, :7S, C:7, >e ro!ser,
Ethernet, 7e!s 9raphs, EP a&&ress, e-mail G Chat.
Enternet connections, Mo&ems, ESP, :ial-up an& :irect Connections, >((, :S(, (ease&
(ine Enternet Security G Privacy, 3iruses G Protection.
U7*) M III M HTML " LINUP
J'M( tags for formatting te,t, pictures, au&io, forms, tales, Entro&uction to CSS,
Special 'ags in J'M(, Entro&uction to NM( Entro&uction to (E7=N 6/S an& Basic
comman&s
U7*) M IV M O+%$+*%3 #; C P$#/$011*7/8 Entro&uction G Basic Structure of C
Programs
Constants, 3ariales G :ata types@ 6perators an& E,pressions@ Managing E/P an& 6/P
6perators@ :ecision ma$ing an& Branching :ecision ma$ing an& (ooping arrays.
U7*) M V
S)$*7/', F&7c)*#7', S)$&c)&$%' " F*(%'
Jan&ling of Character Strings@ =ser &efine& Iunctions 4 Entro&uction, A Iorm of C
Iunctions, Ceturn 3alues an& their types, Category of Iunctions, recursion.
Structures ? Entro&uction, Structure ? :efinition, 9iving 3alues to memers, Structure
Enitili<ation, Comparision of Structure 3ariales, Arrays of Structure 3ariales, arrays of
Structures Entro&uction to IE(E Concept in C (anguage.
R%;%$%7c%'
0. Ale,is (eon G Mathe!s (eon 4 Iun&amentals of E'
-. E.Balagurus!amy 4 Programming in A7SE C
5. Chon&a Arams G Mulie 3alloul 4 >inning Presentation in a :ay.
+. Barara >ilson 4 Enformation 'echnology ? 'he Basics
". (.7.Charli 4 Bioinformatics an& Bioprogramming in C
2. >ias C, Menec$ P 4 :eveloping Bioinformatics Computer S$ills.
BIF1M001PP1L0H#$0)#$G C#&$'% 1
E.E&entification of Carohy&rates, Proteins an& (ipi&s y Fualitative Analysis )Colour Ceactions*
E&entification of mi,tures - Carohy&rates an& Proteins
Carohy&rates - Monosacchari&es, :isacchari&es
an& Polysacchari&es
Proteins - Alumin, Casein, Peptone
(ipi&s - Cholesterol
EE. Fuantitative Analysis of Biomolecules
a*9lucose - Anthrone, :7SA Metho&s
* Protein - (o!ryKs Metho&, Biuret metho&
c* Cholesterol - Za$Ks metho&
&* :7A - :iphenyl Amine Metho&
e* C7A - 6rcinol Metho&
EEE 0* Prepare reports in MS >or&, MS E,cel an& Po!er point
-* 3arious (inu, Comman&s
5* C Programs -0/ 7umerical analysis an& " Biological analysis
S%1%')%$ II
PAPER V M METABOLISM " BIOENERGETICS
BIF2M002PCJC$%.*)' D
U7*)I M M%)0H#(*'1 #; C0$H#:G.$0)%'
:igestion an& Asorption of Carohy&rates.
Biosynthesis, :egra&ation an& Cegulation of Carohy&rates.
9lycolysis, 9luconeogenesis, Citric Aci& Cycle, 9lycogen Metaolism, Pentose
Phosphate Path!ay.
U7*) M II B*#%7%$/%)*c'
Concept of Chemical Energy, Iree Energy, Mitochon&rial Cespiratory Chain, 6,i&ative
Phosphorylation, Cespiratory Control, 'rans&ucing memrane structure in Mitochon&ria
6,i&ation Ce&uction Potential, Electron transport chain, an& electron transfer comple,es.
:epen&ence of o,i&ative phosphorylatium on electron transfer, Synthesis of A'P. A'P as
currency of energy. Jy&rolysis of A'P an& other high energy molecules.
Photosynthesis ? An overvie!@ Chloroplasts, Ceaction Centres, Cyclic an& 7on Cyclic
photophosphorylation, Calvin Cycle.
U7*)III M M%)0H#(*'1 #; L*9*.'
:igestion G Asorption of (ipi&s.
Biosynthesis, :egra&ation an& Cegulation of (ipi&s Beta-o,i&ation Path!ay, Iormation
of Oetone o&ies, Iatty aci& Biosynthesis, Biosynthesis of Memrane (ipi&s an& sterols
4 Phosphati&ate an& cholesterol. :erivatives of Cholesterol.
Secon&ary Metaolites ? Biosynthesis of 'erpenes, Phenols an& 7itrogenous compoun&s
an& their roles.
U7*) M IV
7ucleoti&e Metaolism
7ucleoti&e iosynthesis@ :e 7ovo Path!ay
Salvage Path!ay
Cataolism of Purines an& Pyrimi&ines
U7*) V 8 P$#)%*7 M%)0H#(*'1
:igestion an& Asorption of :ietary Proteins, Amino Aci& &egra&ation, =rea Cycle
Enorn Errors of Metaolism
Biosynthesis of Amino Aci&s
Amino Aci&s as precursors of 7eurotransmitters, Porphyrins 4 Metaolic Path!ay an&
Cegulation, 7itrogen assimilation an& fi,ation in microorganisms.
R%;%$%7c%'8
0. 3oet : G 3oet M ? Biochemsitry
-. (ehningers ? Principles of Biochemistry.
5. Murray, 9ranner, Mayes, Co&!ell ? JarperKs Ellustrate& Biochemistry.
+. Stryer ? Biochemistry.
". Mathe!s@ Jol&@ Ahern ? Biochemistry.
P09%$ VI M GENERAL MICROBIOLOGY
BIF2M002PCK C$%.*)' M !
U7*) M I
Principles of Bacterial 'a,onomy an& E&entification of Bacteria. =ltra Structures of
Peast.
Jistory of Microiology. Iive Oing&om Classification of (iving System. Stu&y of
Microial morphology Microscopy, Specimen Preparation, Staining Metho&s, =ltra
Structure of Bacterial Cells.
U7*) M II
'ransport G Storage of Microes an& impact of environmental parameters on gro!th of
microorganisms. Microial Physiology, Iactors &etermining microial gro!th. 7utrition,
9ro!th curve, 9ro!th Oinetics, Microial metaolism, culture me&ia an& metho&s
cultivation of acteria.
U7*) M III
Sterili<ation principles an& 'echni8ues 4 :isinfection, Mechanism of action of
Antiiotics, Metho& of testing antimicroial sustances, :rug Cesistance in Bacteria.
U7*) M IV
Me&ically significant Bacteria@ Prominent e,amples an& their stu&y?
Staphylococcus, Coryne acterium, Bacillus anthracis, Mycoacterium, Mycoplasma.
Ieatures an& classification of 3iruses.
Me&ically significant viruses@ Prominent e,amples an& their stu&y?
Jerpes, 6ncogenic viruses, JE3, Aroviruses, My,ovirus, Bacteriophage (am&a ? (ife
Cycle ? (ysogeny an& (ytic path!ay.
U7*) V
Plasmi&s, Protoplast G Spheroplast microial genetics ? Con%ugation, trans&uction an&
transformation an& genotypic changes.
Entro&uction to recominatnt :7A technology using plasmi&s as vectors.
R%;%$%7c%'8
0. Cussel A.: ? Principles an& Practice of :isinfection Preservation an&
sterioli<ation.
-. Bryan (.E ? Antimicroial :rug Cesistance
5. Pelc<ar Mr Chan, Oreig ? Microiology concepts an& applications
+. Prescott Jarley G Olein ? Microiology
". Ananthanarayanan G Mayaram Panic$er ? 'e,too$ of Microiology
2. Oucera an& Myrvi$ ? Iun&amentals of Me&ical 3irology.
A. Mac$ie an& McCartney ? Me&ical Microiology
1. Oreig 7.C., >illiams an& >il$ins ? BergeyKs Manual of Systematic Bacteriology.
P09%$ VII M GENOMICS
BIF2M002PCLM C$%.*)' D
U7*) M 1 M S%I&%7c% A$c:*)%c)&$% #; G%7#1%'
6rgani<ation of genome ? Single se8uence :7A, Enterme&iate repeat :7A, Jighly
repetitive :7A, Cpgislan&s, 9ene Iamilies, Pseu&ogenes, :uplicate& genes,'an&emly
repeate& genes.
7on protein Co&ing genes, Split genes, 6verlapping genes, Spacer regions, 6CIKs
Cryptic genes. Multigene Iamilies in Eu$aryotes, (E7EKs, SE7EKs an& 'ransposons
)Bacteria, Eu$aryo$s an& Cetrotransposons*, Microsatellites, Minisatellites an& other
molecular mar$ers
U7*) II M M099*7/ ):% H&107 G%7#1%
Physical Maps an& 9enetic Maps
Physical Maps 4 Clone Maps, CJ Maps, ES'Ks, S'S Maps, IESJ )Iluroscent Ensitu
Jyri&i<ation*
9enetic Maps 4 Map =nits, Enformative an& 7on informative phases, Japlotype, CEPJ
Iamilies, (6: 4 Score Analysis.
U7*) M III M S%I&%7c*7/ ):% H&107 G%7#1%
Celera 9enomics an& EJ9SC 4 Strategies for se8uencing
Se8uencing technology 4 SangerKs &i&eo,y metho& )Automate& !hole 9enome shotgun
se8uencing*
Ma$ing the Clone Map? 9enerating, Assemling an& Iinishing the se8uence.
Ethical Essues relate& to Juman 9enome Pro%ect
Accessing genomes, S7PKs, S'SKs, Cp9islan&s, 9C content
Annotating genomes? 9ene pre&iction in Pro$aryotes an& Eu$aryotes 6CI pre&iction,
Evaluation of gene pre&iction an& functional annotation. Applications an& uses,
A&vantages an& rea$throughs of J9P
U7*)IV M F&7c)*#70( G%7#1*c' 07. C#190$0)*+% G%7#1*c'.
E,pression, regulation an& cloning &isease genes 3s normal genes.
Case stu&y 0 4 Breast Cancer
Case Stu&y - 4 CI'C gene
Comparative 9enomics 4 Purpose an& Metho&s of Comparison, Comparison at
nucleoti&e level, rea$points level, gene cluster level, ontological an& phylogenetic
comparison. Application of comparative 9enomics.
Microarray ase& techni8ue 4 Analysis of gene e,pression at C7A an& protein level
:7A Iingerprinting G :7A Ioot printing
S7P Maps in population stu&ies.
R%;%$%7c%'8
0. 9enomes 5 ? '.A.Bro!n
-. Juman Moleuclar 9enetics -
n&
E&ition ? Peter Su&ury
5. Se8uence an& 9enome Analysis ? :avi&.> Mount
+. A.Malcolm Campell, (aurie M.Jeyer ? :iscovering 9enomics, Proteomics an&
Bioinformatics
". Bioinformatics? A practical gui&e to the Analysis of 9enes an& Proteins ? An&reas
:Ba,eranis, B.I.Irancis 6uelette.
2. 9enomics an& Cloning@ 'echnology G Applications J.:.Oumar
A. Microarray Bioinformatics ? :v Ste$el
1. :ata Analysis an& 3isuali<ation in 9enomics an& Proteomics ? A<ua%e an&
:opa<o.
P09%$ VIII MB*#*7;#$10)*c' " P%$(
BIF2M002PCNMC$%.*)' D
U7*) I B*#(#/*c0( '%I&%7c% A70(G'*'
Concept of se8uence Alignment, Scoring matrices? PAM G B(6S=M@ Alignment of
Pairs of se8uences? :ot Plot@ Alignment Algorithms-7ee&leman an& >unsch Algorithm,
Smith >aterman Algorithm, Search for Jomologous se8uences using B(AS' G IAS'A
programs
Multiple Se8uence Alignment? :ynamic Programming an& progressive alignment. 'ools?
Clustal >, '-Coffee, Altavist an& 9ene :oc.
U7*) II E+#(&)*#70$G A70(G'*' 07. M#(%c&(0$ P:G(#/%7G8 Concept of Molecular
Phylogeny, Cepresentation of Phylogeny, 'ypes of trees, Molecular cloc$ Jypothesis,
&istance ase& metho&s-=P9MA an& 7M Algorithm. Character ase& metho&s? Ma,imum
Parsimony an& Ma,imum li$elihoo&@ vali&ating trees, Boot strapping an& Mac$ $nifing,
Stu&y of Phylogenetic soft!are-PJP(EP, Clustal N an& PA=P, 'ree vie!ing soft!are.
U7*) III PERL
Entro&uction to PEC(, 3ariale 'ypes, :ata types, operators, control structures, lists an&
Arrays, Suroutines, Jash functions, other useful functions, Cegular e,pressions.
U7*) IV PERL C#7)..
Basic Enput output, special variale Q AC93, Comman& live Args, Iile Jan&les an&
'ests, :irectory 6perations, C9E Programming? 9E' an& Post Metho&s@ PEC( graphics.
U7*) V BIOPERL
Entro&uction to BE6-PEC(, BE6-PEC( o%ects, implementation of Bioinformatics
algorithms for searching an& matching in PEC(, B(AS' parsing, han&ling P:B files,
se8uence retrieval, alignments.
R%;%$%7c%'
0. C.A.6rango, :.'. Mones an& M.M.'hornton-Bioinformatics 49enes Proteins an&
computers
-. An&reas :. Ba,evaris Bioinformatics A Practical 9ui&e to the Analysis of 9enes
an& Proteins
5. Zhumur 9hosh G Mallic$ Bioinformatics Principles an& Applications
+. Meremy M. Cams&en 4Bioinformatics? An Entro&uction
". :.Maunt Bioinformatics se8uence G 9enome Analysis
2. Mames : 'is&all- Mastering Perl for Bioinformatics
A. >all, Christian G 6r!ant- Programming Perl
1. Jarsha!ar&han P.Bal - Perl Programming for Bioinformatics
BIF2M002PP2L0H#$0)#$G C#&$'% 2
E Sterili<ation techni8ues, Preparation of 7utrient me&ia, Plating techni8ues, Esolation of
Bacteria, Peast an& fungi, 9ro!th of Bacteria, 9ro!th curve y turi&ity an& colony
counting Bacterial staining proce&ures.
EE Esolation an& characteri<ation of acteria of me&ical importance.
EEE 0* >or$ing $no!le&ge of Perl an& Bio-Perl Programming
)0" Programs minimum*
-. 9ene Structure an& Iunction pre&iction. )=sing 9ene Mar$ an& 9en Scan*
5. 6CI Pre&iction)=sing 6CI Iin&er*
+. Se8uence Similarity Searching )7CBE Blast, IAS'A*
". Multiple se8uence Alignment )Clustal >/Clustal N*
2. Molecular Phylogeny )PJP(EP*
A. Analysis of 7ucleic Aci& Se8uences )=sing Bioinformatics 'ools*
S%1%')%$ III
P09%$ IPP$#)%#1*c'
BIF!M00!PCO C$%.*)'D
U7*) MI
P$*7c*9(%' 07. P0))%$7' #; P$#)%*7 ')$&c)&$% 07. C#7;#$10)*#7
7ature of chemical on&ing@ pepti&e on&@ Iorces staili<ing structure of protein )ionic,
hy&rophoic, 3an&er!aals, hy&rogen on&ing an& covalent on&ing* levels of protein
structure? primary, secon&ary, 'ertiary an& 8uaternary structures !ith e,amples.
Camachan&ran plot
U7*) MII
E69(#$*7/ P$#)%*7'
Applications of =3-3isile, Iluoroscent Spectroscopy, C: an& 7MC spectroscopy to
stereochemistry of proteins an& nucleic aci&s. Applications of chromatography,
centrifugation an& Electrophoresis techni8ues in isolating, separating an& purifying
protein molecules. Protein se8uencing an& Mass spectrometry. Protein structure
:etermination y N-ray crystallography.
U7*) III
P$#)%*7 c(0''*;*c0)*#7
(etter co&es for Aminoaci&s, Jeli,, sheet, stran&, (oop turns, Motifs, (eucine <ipper,
Zing finger, Jeli, 'urn Jeli,, Jeli, (oop Jeli,, Bloc$s, class an& :omains, Iol&,
PSSM, Profile.
Principles of classification ase& on structural features
CA'J-Classification y class, Architecture, 'opology, Jomology
SC6P-Structural Classification of Protein, ISSP-Iol& Classification ase& on structure.
U7*) MIV
P$#)%*7 S)$&c)&$% P$%.*c)*#7
=sing se8uence pattern, pre&icting :7A protein, C7A Protein, transmemrane an&
signal pepti&es. Secon&ary structure pre&iction? Chou-Iasman/96C metho&, 7earest
7eighour metho& an& tertiary structure pre&iction. Jomology Mo&elling an& 'hrea&ing,
Jigh throughput Analysis for proteomes
U7*) MV
Active site pre&iction
7ature an& properties of en<ymes
Active site mapping, En<yme Oinetics, En<yme Enhiition, En<yme Cegulation
Molecular 3isuali<ation-Casmol G SP:B3
R%;%$%7c%'
0. C.A.:rengo, :.'. Mones an& M.M'hornton Bioinformatics 49enes, Proteins an&
Computers
-. :.Mount-Bioinformatics Se8uence G 9enome Analysis
5. 'imothy Pal<$ill - Proteomics
+. Engvar Ei&hammer, Enge Monassen an& >illiam C 'aylor - Protein
Bioinformatics?An Algorithmic Approach to se8uence an& structure Analysis.
". 3.Pattahi G 7.9autam - Biophysics
2. Carl Bran&on an& Mohn 'oo<e - Entro&uction to Protein structure.
A. Oris 9evaent - Protein E&entification Metho&s in Proteomics
1. S.C.Pennington an& M.M.:unn 4 Proteomics
.. Stryer-Biochemistry.
P09%$ P I11&7#(#/G
BIF!M00!PC10C$%.*)'D
U7*) I
Entro&uction to immunology, infection, immunity, types of immunity, Cells an& organs of
immune system. Jyri&oma 'echnology, Monoclonal antio&ies, immunogloulins.
Antigen, Antio&ies, Antigen-antio&y reactions. Complements an& complement
activation.
U7*) II
9enetic asis of antio&y &iversity@ B cell &ifferentiation B Cell memrance proteins. '
cell &ifferentiation, '-cell receptor comple,, Ma%or histocompatiaility comple,, MJC
restriction.
U7*) III
Emmunostimulants, immunomo&ulants an& E(ESA. Jumoral an& cellular immune
response. Activation of ' an& B cells C yto$ines. Emmunoregulation, Emmunologic
tolerance.
U7*) IV
Jypersensitivity, Auto immunity, Emmuno &eficiency &iseases. 'ransplantation
immunology, tumor immunology an& immune hematology.
U7*) V
Computational Emmunology
MJC pepti&es 4Structure an& interactions FSAC ase& pre&ictions of epitopes. Epitope
mo&ification, epitope mapping tools, Allergenicity pre&iction. 3accine &esign an& system
immunology
R%;%$%7c%
0. Coitt Els? Essential Emmunology
-. Ouy immunology Oin&t 9ol&sy
5. :A3E: M Jentges Microiology an& Emmunology
+. Paul >.E Iun&amental immunology
". Jelen Chappel R Mansel Jaeney Essential clinical immunology
2. C.Ananthanarayan an& C.O. Mayaram? 'e,t oo$ of Microiology
A. Mohn > Oimall MAN>E(( Entro&uction to immunology
1. :aren C. Ilo!er Emmunoinformatics pre&icting Emmunogenicity En Silico.
P09%$ PIDBMS 07. B*#(#/*c0( D0)0H0'%'
BIF!M00!PC11 C$%.*)' D
U7*) I
:ataase concept, !or$ing !ith forms, :ata :efinition (anguages, :ata Manipulation
(anguage, :ata Control (anguages, Structural Fuery (anguage, creating triggers.
Entro&uction to P(/SF(, SF( plus an& SF(M.
U7*) II
3isual Basic- Entro&uction to Client/Server 'echnology, Entro&uction to 3B, Ieatures,
:atatypes, Strings, 3ariant, Constant, :ata Arrays, (ooping an& Enteractive statements
Iunctions in 3B, >or$ing !ith controls an& proce&ures, Entro&uction to :ata
Connectivity, :ifferent :ataase Connectivity.
U7*) III
Biological :ataases? 7ature an& &iversity of &ata, classification an& importance of
Biological :ataases, 7ucleic Aci& &ataases-Primary Se8uence :ataases an&
secon&ary se8uence :ataases, 7CBE, Protein &ataases-se8uence an& structure,
&ataases ) Primary an& secon&ary*
U7*) IV
(iterature :ataases, :isease :ataases, Microiological &ataases, 9enome :ataases
an& other speciali<e& :ataases.
R%;%$%7c%'
0. Janery Oorth an& Araham Siler Schat<? :ataase System concepts
-. 9ias C. Memecl P? :ereloping Bioninformatics computer s$ills.
5. M.M. Martin ? Entro&uction to :ataase system
+. 'hayer Co? 3isual Basic 2
". Cornel 9ray? 3isual Basic 2 Irom the group up
2. Meri$e 7oel? 'he Complete Ceference 3isual Basic 2.
A. Misner S, Ora!et< ? Bioinformatics-Metho& an& Protocols.
P09%$ PII B*#*7;#$10)*c' *7 ;&)&$%
BIF!M00!PC12Mc$%.*)'!
U7*) I
M*c$#0$$0G B*#*7;#$10)*c'? Concept of gene e,pression, 'ypes of microarrays@ Ma$ing
Microarrays@ Spotte& Microarrays, Ensitu synthesi<e& 6ligonucleoti&e arrays, Affymetri,
technology, =sing Microarrays, sample preparation an& laeling, Jyri&i<ation, !ashing,
image ac8uisition@ Micro array image processing, Emage formats, feature e,traction,
7ormali<ation.
U7*) II
SG')%1' 07. SG7):%)*c B*#(#/G
System concept 4Properties of Biological systems, self organi<ation, emergence, chaos in
&ynamical systems, linear staility, ifurcation analysis, limit cycles, attractors, stochastic
an& &eterministic processes, continuous an& &iscrete systems, Mo&ularity an&
Astraction, fee&ac$, control Analysis, >ell steirres system, Mathematical mo&eling@
Biological 7et!or$s-Signal Path!ay, 9C7, PPE7, Ilu, Balance Analysis,
Systems iology 3s synthetic Biology, Parts, :evice an& systems@ Bioric$s, Circuitory
an& chassis,, Bacterial camera, 'oggle s!itch, (ogic gates, 6scillators, Soft!ares for
synthetic Biology, Case stu&y of 'in$er Cell
U7*) III
P:0$10c#/%7#1*c'
Entro&uction, Jistory, Pharmacogenomics vs Pharmacogenetics, Pharmaco$inetics an&
Pharmaco&ynamics, Juman genetic variations, alleles, 'ypes of Polymorphisms, S7PKs
at structural an& functional level. S7PKs an& emergence of &rug resistance Multi&rug
Cesistance in 'uerculosis concept of P+, Personali<e& Me&icine an& ethical issues in
pharmacogenomics, Case stu&y of Pharmacogenomics an& Pharmacogenomic mar$ers in
Schi<ophrenia, Alcoholism G 7euro&egenerative &iseases.
U7*) IV
A((*%. T#9*c' *7 B*#*7;#$10)*c'
Cheminformatics, 'o,icogenomics, Clinomics, Ayurinformatics, Mitochon&rionics,
Metaolomics, 'ranscriptomics, 7e,t generation Se8uencing.
R%;%$%7c%'
0. :av Sta$el? Microarray Bioinformatics
-. =ri Alon-Entro&uction to Systems Biology :esign, Principles of Biological
Circuits
5. Stephen Ora!et<-Bioinformatics for systems Biology
+. Moseph Sec$ac$ an& Eitan Cuin-7e! Avenues in Bioinformatics
". Pan an& Fing-Pharmacogenomics in :rug :iscovery an& :evelopment
2. P.7. Bannet an& M.M.Bro!n Clinical Pharmacology
A. :arren C. Ilo!er-Emmune informatics
1. Ouin%i an& Muller 4Chemogenomics in :rug :iscovery
BIF!M00!PP!L0H#$0)#$G C#&$'% !
E 0* 3isual Basic Programming
a* Pro%ect to all si, rea&ing frames
* Pro%ect to convert :7A to C7A, C7A to Protein, :7A to Protein
c* Pro%ect to Cestriction site fin&er
&* Pro%ect to Proteolytic cleavage
e* :ataase Creation
i* :isease &ataase
ii* Motif &ataase
-* Biological &ataan$s
a* Se8uence :ataases
* Structure :ataases
c* Speciali<e& :ataases
5* Protein Se8uence Analysis )E,pasy Proteomics tools Any -"*
+* Molecuar 3isuali<ation using Casmol or other programs
"* Microarray &ata Analysis using MA9EC 'ool
EE 0* Agglutination Ceaction-AB6 Bloo& 9rops an& Ch 'yping
-* Emmuno :iffusion Assays-Single ra&ial Emmuno :iffusion assay )Mancini
'echni8ue*:oule &iffusion Emmuno assay )6uchterlony 'echni8ue*
5* E(ESA 'ests
+* 3E:A( an& 3:C( sli&e tests for :iagnosis of 'yphoi& an& syphilis respectively
S%1%')%$IV
E(%c)*+% IG%7%)*c E7/*7%%$*7/ " IPR
BIFDM00DPE1MC$%.*)' D
U7*) I
Cecominant :7A 'echnology, 'echni8ues of 9ene Manipulation an& En<ymes
involve&.3ectors- Plasmi&s Phages, Artificial vectors 4Cosmi&s, Phasmi&s, Iosmi&s, an&
E,pression vectors, vectors use& in 9enome Se8uencing strategies. Metho&s of 9ene
'ransfer, E&entification of recominant :7A, Selection of transformants, Applications of
r:7A 'echnology
U7*) II
Esolation of 9ene, Construction of gene liraries, c:7A an& 9enomic (irary,
Chromosome >al$ing, chromosome Mumping, >hole 9enome shotgun Se8uencing,
Polymerase chain reaction an& its variants 9ene se8uencing 4SangerKs :i&eo,y Metho&,
Ma,am an& 9ilert Chemical :egra&ation Metho&.:etection of 'arget :7A- Colony
Jyri&i<ation, Southern Jyri&isation, Ensitu Jyri&isation, Ensitu Jyri&isation an&
other Blotting techni8ues
U7*) III
'ransgenic 6rganisms from C.elegans to :olly to Jumans? Metho&s, Strategies an&
techni8ues use& in gene transfer. Envitro Mutagenesis an& &eletion techni8ues. 9ene
Onoc$ outs in acterial an& eu$aryotic cells.
U7*) IV
Proes use& in Molecular Biology, their nature an& applications, Molecular mar$ers-
CI(P, CAP: G AI(P 'echni8ues, :7A Iinger printing an& :7A foot printing, C7A
interference, Micro C7A, SiC7A, Antisense C7A, Chemical Synthesis of 9ene.
U7*) V
EPC A!areness-Copyrights an& Patents
EPC for Soft >ares an& (ife forms
EPC (a!s in En&ia
Patent Amen&ment --//" an& its impact
Economic enefits of EPC protection
Ethical Essues of 9enetic Engineering.
R%;%$%7c%'
0. >atson M.:? Molecular Biology of the 9ene.
-. 6l& C.> Primrose? Principles an& 'echni8ues of 9ene Manipulation
5. (e!in B? 9ene 3EEE
+. Irefiel&er : ? Essentials of Molecular Biology
". '.A. Bro!n? 9ene Cloning an& :7A Analysis
2. Peter M Cussell? 9enetics A Molecular approach
A. Coert I.>earer? Molecular Biology
1. B.C<cpul$o!s$i? Analy<ing Chromosomes
.. B.:.Singh? Molecular Biology, 9enetic engineering an& Applications of
Biotechnology.
0/. Baner%i Cao, Entellectual property Cights? A Primer, Eastern Boo$ Company
E(%c)*+% II CADD " M#(%c&(0$ M#.%((*7/
BIFDM00DPE2C$%.*)' D
U7*) I
Basic Concepts on :iseases, 6vervie! of Juman Physiology@ 6vervie! of &isease types
an& causes@ Juman immune response system@ Molecular asis of &iseases@ Molecular
targets, target i&entification, target vali&ation &rugggaility.
:rugs? Ma%or Characteristics, Mo&e of Action, Against an& Antagonist, :rug &iscovery,
Jistory of &rugs an& &rug &iscovery classical &rug &iscovery approaches, seren&ipity,
concept of Jit an& hea&@ &rug &iscovery pipeline.
U7*) II
Entro&uction to the concept of Molecular Mo&elling, Molecular structure an& Enternal
energy, Application of Molecular graphics Energy Minimi<ation of small molecules@
empirical representation of molecular energies, use of Iorce fiel&s an& the molecular
mechanics metho&. :iscussion of local an& gloal energy minima.
U7*) III
'echni8ue of Molecular :ynamics an& Monte Carlo simulation for conformational
Analysis Ainito, &ft an& semi-empirical metho&s.
U7*) IV
Entro&uction to macromolecular Mo&eling :esign of ligan&s for $no!n macromolecular
target sites@ :rug receptor interactions, classical FSAC stu&ies an& their implications to
the 5: Mo&eler, -: an& 5: &ataase searching. Pharmacophore i&entification an& novel
&rug &esign.
U7*) V
Iin&ing ne! &rug targets to treat &isease, 7e! targets for Anti-Cancer &rugs. Structure
ase& &rug &esign for all classes of targets.
R%;%$%7c%
0. 7.Clau&en Cohen-9ui&e oo$ on Molecular Mo&elling in :rug :esign
-. An&re! C. Molecular Mo&elling Principles an& Applications
5. 3.Oothe$ar 4 Essentials of :rug &esigning
+. Paul.S Charifson 4Practical application of computer Ai&e& :rug :esign.
". 'amas Barl I@ an& 9raham 3. (ees- :rug :iscovery
2. O.:. 'ripathi 4Essentials of Me&ical Pharmacology.
E(%c)*+% III B*#9$#/$011*7/ 07. S#;) C#19&)*7/ T%c:7*I&%'
BIFDM00DPE! C$%.*)' D
U7*) MI
I7)$#.&c)*#7 )# R P$#/$011*7/
6vervie! of the C (anguage@ :efining C Pro%ect@ 6taining C, !here to get help
9enerating C Co&e 4Basic Programming Concepts, Scripts, 'e,t e&itors for C, 9raphical
=ser Enterfaces )9=EKs* for C@ 3ectors an& Matrices, :ata Irames an& tests, :atasets
inclu&e& in C Pac$ages@ Manipulating o%ects, 9raphics )Basics* Mathematical
6perations, Basic Matri, computation Cegular Se8uences, Searches, strings an& Pattern
matching, Jypothesis testing an& &ata han&ling@ t-tests an& A763A )Basics*.
U7*) II
I7)$#.&c)*#7 )# MATLAB
MA'(AB as calculator, stan&ar& Matla !in&o!s, operations !ith variales, arrays,
!riting script files, !riting functions, simple graphics, :ata types, Iile Enput-output,
Communication !ith e,ternal &evices.
U7*) III
I7)$#.&c)*#7 )# PG):#7
Ieatures of Python, :ata types, 3ariales operators, Ieatures of Python, :ata types,
3ariales, operators an& e,pressions, control flo! tools, functions, :ata structures, Enput
an& 6utput, Entro&uction to o%ect oriente& programming CSS an& Zope.
U7*) IV
Soft Computing 'echni8ues an& Algorithms, Entro&uction to Soft computing, Ji&&en
Mar$ov Mo&els? Application in Bioinformatics A77 )Artificial 7eural 7et!or$s* an&
their applications in Bioinformatics. Concepts an& Applications of S3M )Support 3ector
Machines* in Bioinformatics. Basic concepts an& Applications of 9enetic Algorithms.
R%;%$%7c%'
0. 7athan Pan- 'he Art of C Programming
-. Cu&ra Prathap 49etting starte& !ith MA'(AB
5. Pratihar- Soft Computing
+. :.M.Etter et al 4Entro&uction to MA'(AB-2
". Mar$ (ut< Programming Python
2. :avi& M.Bea<ly Python Essential Ceference.
BIFDM00DPPDL0H#$0)#$G C#&$'% D
E 0* >or$ing Ono!le&ge of python an& C Programming )any 0/ simple programs*
EE 0* Jomology Mo&eling using SP:B3
-* Mo&el Structure refinement using SP:B3
5* Mo&el vali&ation using >hat Chec$ an& Pro chec$
+* :oc$ing using any &oc$ing tools
"* Stu&y on P:B Sum
2* Analysis of Protein )Se8uence an& structure* an& :7A )Any 0/ tools*
EEE 0* >or$ing Ono!le&ge an& :emonstration of PCC
-* >or$ing $no!le&ge an& :emonstration of Electrophoresis, Centrifugation an& A&vance&
Chromatographic techni8ues commonly employe& for isolation, separation, an&
purification of protein an& :7A.
5* >or$ing $no!le&ge of :7A se8uencing )SangerKs :i-&eo,y Metho&* an& recominant
:7A 'echnology.
A..*)*#70( E(%c)*+% I IPR " B*#%):*c'
BIFDM00DPED C$%.*)' D
U7*) I
I7)$#.&c)*#7 )# I7)%((%c)&0( P$#9%$)G
'ypes of EP? Patents, 'ra&emar$s, Copyright G Celate& Cights, En&ustrial :esign,
'ra&itional Ono!le&ge, 9eographical En&ications, Protection of 7e! 9M6s@ Enternational
frame!or$ for the protection of EP. Envention in conte,t of Sprior artT@ Patent &ataases@
Searching Enternational :ataases@ Country-!ise patent searches )=SP'6, EP6, En&ia etc.*@
Analysis an& report formation
U7*) II
'ypes of patents@ En&ian Patent Act 0.A/@ Cecent Amen&ments@ Patent application- forms
an& gui&elines, fee structure, time frames@Iiling of a patent application@ Precautions efore
patenting-&isclosure/non-&isclosure@ Patent application- forms an& gui&elines, fee structure, time
frames@ 'ypes of patent applications? provisional an& complete specifications@ PC' an&
convention patent applications@ Enternational patenting-re8uirement, proce&ures an& costs@
Iinancial assistance for patenting-intro&uction to e,isting schemes.
U7*) III
EPC an& copyrights, Emportance of protecting scientific &iscoveries, Fualification for a
Patent 4 7ovel, Commercial G 7on-ovious, Muris&iction of Patent la!s, proce&ures Iiling of a
patent application@ Precautions efore patenting-&isclosure/non-&isclosure
U7*) V
EPC policy of 9overnment of En&ia, En&ian G Enternational Patent la!s, En&ian Patent Act
0.A/@ Cecent Amen&ments@ Iinancial assistance for patenting-intro&uction to e,isting schemes.
Cole of patents in Biotechnology an& Bioinformatics. 'he patent aility of microorganisms - EPC
an& >'6 regime - consumer protection an& plant genetic resources-9A'' an& 'CEPS, Patenting
gene. Essues an& case stu&ies.
R%;%$%7c%'
0.P. 7arayanan, Entellectual Property (a!s, Eastern (a! Jouse.-//0
-.Meenu Paul, Entellectual Property (a!s, Allahaa& (a! Agency.-//.
5.Entellectual Property (a! containing Acts an& Cules, =niversal (a! Pulication Company.
A..*)*#70( E(%c)*+% IIPHARMACEUTICAL CHEMISTRY " ACTION OF
SELECTED DRUGS
BIFDM00DPEJ C$%.*)' D
U7*)I
Entro&uction to Antiiotics an& mechanism of their action ?Structure,chemistry an& SAC of?
Beta lactam Antiiotics, Pencillins, Cephalosporins, 'etracyclines,
Macroli&es,Aminoglycosi&e antiiotics an& other miscellaneous antiiotics .
Antituercular Agents an& their mechanism of action.
AE:S
(ife Cycle of JE3-3irus ,Potential 'argets for Anti-JE3 agents@ 7ucleosi&e an& 7on
7ucleosi&e Analogues.
U7*)II
Entro&uction to Cancer@ Classification of Anti cancer Agents, Structure, Chemistry, SAC an&
Mechanism of action of ?-
Al$ylating Agents
Antimetaolites
Antiiotics.
Plant Pro&ucts.
Miscellaneous Agents.
U7*)III
Antipyretics an& 7on-steroi&al Anti-Enflammatory :rugs. Biosynthesis of Eicosanoi&s,
Mechanism of Anti-Enflammatory Action an& their si&e effects. Chemistry,Structure an& SAC
of
Salicylates - Aspirin as an e,ample
p-Aminophenol &erivatives-Paracetamol as an e,ample.
Pyra<oli&ine&ione &erivatives- Any one e,ample
Anthranilic aci& &erivatives.
- En&ole acetic aci& ,&iclofenac etc as e,amples.
6,icams
Miscellaneous e,amples.
U7*)IV
Anti-Par$insonKs Agents, Chemistry,structure,Mechanism of Action an& SAC of ?-
:opamine agonists
:opa &ecaro,ylase inhiitor
:opamine releasing agents
Synthetic anticholinergics
6ther miscellaneous antipar$inson agents
Entro&uction to :ementia an& Al<eheimerKs :isease? Chemistry ,Structure, Mechanism of
action an& SAC of? Cholinergic Agonists an& Acetyl Choline Esterase Enhiitors.
U7*)V
7arcotic Analgesics?
Chemistry of Morphine an& its analogues
Chemistry of Piperi&ines, :iphenyl heptanones
7arcotic Antagonists.
Anti&epressants an& mechanism of action.
Cole of monoamine o,i&ase.
REFERENCES
0* Essentials of Pharmaceutical Chemistry@ :onal& Cairns
-* Me&icinal Chemistry@:.Sriram,P.Pogees!ari
5* An Entro&uction to Me&icinal Chemistry @9raham.(.Patric$ ,Mohn Spencer -//.
+* Me&icinal Chemistry@Ashuthosh Ohar Cevise& 'hir& E&ition,7e! Age Pulishers
"* 'e,too$ of Me&icinal Chemistry,3olume -@Prof.:r.3.Alagars!amy
2* Pharmaceutical Chemistry -@:r.A.3.Oasture,:r.S.9.>a&o&$ar
A..*)*#70( E(%c)*+% III B0'*c' #; N07#)%c:7#(#/G
BIFDM00DPEK C$%.*)' D
U7*) I
F&7.01%7)0( C#7c%9)'8 7anotechnology? Basic concepts an& intro&uction@
7anomechanics- 7anotriology@ Scanning proe microscopy@ nanomaterials an& its
han&ling@ nanoots an& nanofuture, nano-fying Electronics, nanofires, nanopore an&
nanotues.
U7*) II
P$#.&c)*#7 07. c:0$0c)%$*Q0)*#7 #; 707#90$)*c(%'8 Entro&uction to 7anoscience
'echni8ues use& in 7anoiotechnology? 6ptical Microscopy, Atomic Iorce, Microscopy,
SEM@ Pro&uction of nanoparticles? Collision / Coalescence mechanism of primary
particleformation, nanoparticles agglomerates G aerogels.
U7*) III
N07#90$)*c(%' ;#$ C07c%$ D$&/ D%(*+%$G8 Cancer an& current approach to its cure
through nanoparticles, characteristics of tumor tissues, &rug &elivery to tumors, physio-
chemical properties of nanoparticles in cancer therapy, site specific &elivery of
chemotherapeutic agents using nanoparticles.
U7*) IV
N#7+*$0( G%7% T:%$09G 3*): 707#90$)*c(%'8 Entro&uction, Jyperthermia, controlle&
&elivery of chemotherapeutic &rugs, nanoparticles to circumvent M:C, potential
prolems using nanoparticles. Application of 7anotechnology in Agriculture, Me&icine,
Communication technology, Biotechnology an& Bioinformatics.
R%;%$%7c%'
0. Bharat Bhushan., 7anotriology an& 7anomechanics - An intro&uction, Springer.
-. Mar$, Catner :aniel Catner, 7anoiotechnology- ne,t ig i&ea.
5. Challa S.S.C.Oumar, Moseph Jornes, Carola (euschner, 7anofarication to!ar&s
Biome&ical applications.